HEADER IMMUNE SYSTEM 25-OCT-16 5TR8 TITLE CRYSTAL STRUCTURE OF VACCINE-ELICITED PAN- INFLUENZA H1N1 NEUTRALIZING TITLE 2 MURINE ANTIBODY 441D6. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 441D6 FAB LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 441D6 FAB HEAVY CHAIN; COMPND 7 CHAIN: H; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_COMMON: MOUSE; SOURCE 10 ORGANISM_TAXID: 10090; SOURCE 11 GENE: HC; SOURCE 12 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS NANOPARTICLE, FERRITIN, IMMUNE SYSTEM, ANTIBODY EXPDTA X-RAY DIFFRACTION AUTHOR M.G.JOYCE,M.KANEKIYO,J.R.MASCOLA,B.S.GRAHAM,P.D.KWONG REVDAT 4 04-OCT-23 5TR8 1 REMARK REVDAT 3 07-AUG-19 5TR8 1 JRNL REVDAT 2 06-JUN-18 5TR8 1 SOURCE REVDAT 1 09-MAY-18 5TR8 0 JRNL AUTH M.KANEKIYO,M.G.JOYCE,R.A.GILLESPIE,J.R.GALLAGHER, JRNL AUTH 2 S.F.ANDREWS,H.M.YASSINE,A.K.WHEATLEY,B.E.FISHER, JRNL AUTH 3 D.R.AMBROZAK,A.CREANGA,K.LEUNG,E.S.YANG,S.BOYOGLU-BARNUM, JRNL AUTH 4 I.S.GEORGIEV,Y.TSYBOVSKY,M.S.PRABHAKARAN,H.ANDERSEN, JRNL AUTH 5 W.P.KONG,U.BAXA,K.L.ZEPHIR,J.E.LEDGERWOOD,R.A.KOUP, JRNL AUTH 6 P.D.KWONG,A.K.HARRIS,A.B.MCDERMOTT,J.R.MASCOLA,B.S.GRAHAM JRNL TITL MOSAIC NANOPARTICLE DISPLAY OF DIVERSE INFLUENZA VIRUS JRNL TITL 2 HEMAGGLUTININS ELICITS BROAD B CELL RESPONSES. JRNL REF NAT.IMMUNOL. V. 20 362 2019 JRNL REFN ESSN 1529-2916 JRNL PMID 30742080 JRNL DOI 10.1038/S41590-018-0305-X REMARK 2 REMARK 2 RESOLUTION. 2.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 41925 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2053 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 24.6089 - 4.9458 0.92 2542 144 0.1598 0.1680 REMARK 3 2 4.9458 - 3.9308 0.99 2732 139 0.1243 0.1413 REMARK 3 3 3.9308 - 3.4354 0.99 2731 142 0.1464 0.1852 REMARK 3 4 3.4354 - 3.1220 1.00 2726 131 0.1647 0.1725 REMARK 3 5 3.1220 - 2.8986 1.00 2702 165 0.1827 0.2160 REMARK 3 6 2.8986 - 2.7279 1.00 2750 133 0.1872 0.2111 REMARK 3 7 2.7279 - 2.5915 1.00 2693 141 0.2000 0.2511 REMARK 3 8 2.5915 - 2.4788 1.00 2714 135 0.2027 0.2410 REMARK 3 9 2.4788 - 2.3834 1.00 2744 131 0.2147 0.2297 REMARK 3 10 2.3834 - 2.3012 1.00 2679 137 0.2255 0.2991 REMARK 3 11 2.3012 - 2.2293 0.98 2698 125 0.3007 0.3585 REMARK 3 12 2.2293 - 2.1656 1.00 2720 156 0.2491 0.2718 REMARK 3 13 2.1656 - 2.1087 0.99 2708 132 0.2612 0.2676 REMARK 3 14 2.1087 - 2.0572 0.96 2595 129 0.2943 0.3392 REMARK 3 15 2.0572 - 2.0105 0.80 2138 113 0.3016 0.3091 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.790 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 45.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 3420 REMARK 3 ANGLE : 0.856 4649 REMARK 3 CHIRALITY : 0.053 514 REMARK 3 PLANARITY : 0.005 592 REMARK 3 DIHEDRAL : 14.765 2038 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 1 THROUGH 38 ) REMARK 3 ORIGIN FOR THE GROUP (A): 48.0683 7.0549 -16.8063 REMARK 3 T TENSOR REMARK 3 T11: 0.4558 T22: 0.4196 REMARK 3 T33: 0.3781 T12: -0.0414 REMARK 3 T13: 0.0758 T23: 0.0533 REMARK 3 L TENSOR REMARK 3 L11: 4.1924 L22: 2.3456 REMARK 3 L33: 6.7570 L12: 0.4136 REMARK 3 L13: 3.3195 L23: 2.0036 REMARK 3 S TENSOR REMARK 3 S11: 0.1008 S12: -0.1002 S13: -0.3772 REMARK 3 S21: 0.1562 S22: 0.0379 S23: -0.0115 REMARK 3 S31: 0.4788 S32: 0.1816 S33: -0.1225 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 39 THROUGH 101 ) REMARK 3 ORIGIN FOR THE GROUP (A): 42.1690 10.9570 -15.0897 REMARK 3 T TENSOR REMARK 3 T11: 0.3600 T22: 0.4901 REMARK 3 T33: 0.3992 T12: 0.0173 REMARK 3 T13: 0.1149 T23: -0.0280 REMARK 3 L TENSOR REMARK 3 L11: 2.6096 L22: 5.7966 REMARK 3 L33: 4.4878 L12: 1.5576 REMARK 3 L13: 0.3730 L23: 1.0431 REMARK 3 S TENSOR REMARK 3 S11: -0.0401 S12: -0.6023 S13: -0.1953 REMARK 3 S21: 0.1125 S22: -0.2510 S23: 0.6574 REMARK 3 S31: 0.0917 S32: -0.6251 S33: 0.2481 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 102 THROUGH 113 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.6050 2.3828 -35.7845 REMARK 3 T TENSOR REMARK 3 T11: 0.4144 T22: 0.2910 REMARK 3 T33: 0.4183 T12: -0.1256 REMARK 3 T13: 0.0135 T23: 0.0135 REMARK 3 L TENSOR REMARK 3 L11: 4.8866 L22: 1.7915 REMARK 3 L33: 4.6043 L12: 1.8715 REMARK 3 L13: 4.4219 L23: 2.5036 REMARK 3 S TENSOR REMARK 3 S11: -0.0043 S12: -0.2488 S13: -0.4396 REMARK 3 S21: 0.0627 S22: -0.0166 S23: 0.1024 REMARK 3 S31: 0.2820 S32: 0.0630 S33: 0.1170 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 114 THROUGH 139 ) REMARK 3 ORIGIN FOR THE GROUP (A): 42.2871 18.4412 -56.2246 REMARK 3 T TENSOR REMARK 3 T11: 0.4067 T22: 0.2839 REMARK 3 T33: 0.3289 T12: 0.0163 REMARK 3 T13: -0.0447 T23: -0.0201 REMARK 3 L TENSOR REMARK 3 L11: 4.3376 L22: 5.4863 REMARK 3 L33: 4.9682 L12: 2.3591 REMARK 3 L13: -2.1454 L23: -3.0195 REMARK 3 S TENSOR REMARK 3 S11: 0.1707 S12: 0.3614 S13: 0.3171 REMARK 3 S21: -0.1736 S22: 0.2263 S23: 0.4762 REMARK 3 S31: -0.4712 S32: -0.3126 S33: -0.4332 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 140 THROUGH 212 ) REMARK 3 ORIGIN FOR THE GROUP (A): 47.0608 10.7726 -54.3106 REMARK 3 T TENSOR REMARK 3 T11: 0.3066 T22: 0.3234 REMARK 3 T33: 0.3886 T12: 0.0120 REMARK 3 T13: -0.0473 T23: -0.0215 REMARK 3 L TENSOR REMARK 3 L11: 2.0961 L22: 3.8376 REMARK 3 L33: 7.1779 L12: 1.2222 REMARK 3 L13: -2.0243 L23: -2.5043 REMARK 3 S TENSOR REMARK 3 S11: -0.0125 S12: 0.1999 S13: -0.1647 REMARK 3 S21: -0.2875 S22: -0.0998 S23: -0.0753 REMARK 3 S31: 0.2102 S32: 0.2782 S33: 0.1500 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 1 THROUGH 33 ) REMARK 3 ORIGIN FOR THE GROUP (A): 43.3998 34.7325 -18.3233 REMARK 3 T TENSOR REMARK 3 T11: 0.6647 T22: 0.5408 REMARK 3 T33: 0.6450 T12: 0.2361 REMARK 3 T13: 0.0572 T23: -0.0510 REMARK 3 L TENSOR REMARK 3 L11: 3.7973 L22: 2.2229 REMARK 3 L33: 7.3062 L12: -0.4443 REMARK 3 L13: -2.3211 L23: 0.7245 REMARK 3 S TENSOR REMARK 3 S11: 0.0384 S12: -0.0878 S13: 0.3870 REMARK 3 S21: 0.4350 S22: -0.0115 S23: 0.6196 REMARK 3 S31: -0.8099 S32: -0.8064 S33: -0.1467 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 34 THROUGH 59 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.6230 27.6415 -14.7978 REMARK 3 T TENSOR REMARK 3 T11: 0.3940 T22: 0.4059 REMARK 3 T33: 0.3051 T12: 0.0550 REMARK 3 T13: 0.0179 T23: -0.0476 REMARK 3 L TENSOR REMARK 3 L11: 4.3529 L22: 8.1071 REMARK 3 L33: 2.9566 L12: 2.0998 REMARK 3 L13: 2.0012 L23: -1.9456 REMARK 3 S TENSOR REMARK 3 S11: 0.1845 S12: -0.4838 S13: 0.1413 REMARK 3 S21: 0.6231 S22: -0.1005 S23: -0.3814 REMARK 3 S31: -0.1920 S32: 0.4568 S33: -0.1369 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 60 THROUGH 119 ) REMARK 3 ORIGIN FOR THE GROUP (A): 49.7376 31.7370 -19.6007 REMARK 3 T TENSOR REMARK 3 T11: 0.4594 T22: 0.3346 REMARK 3 T33: 0.3940 T12: 0.0888 REMARK 3 T13: 0.0233 T23: -0.0972 REMARK 3 L TENSOR REMARK 3 L11: 2.1368 L22: 1.9633 REMARK 3 L33: 4.0572 L12: -0.0367 REMARK 3 L13: 1.0739 L23: -0.6969 REMARK 3 S TENSOR REMARK 3 S11: -0.0500 S12: -0.3456 S13: 0.2196 REMARK 3 S21: 0.4810 S22: -0.0394 S23: 0.1913 REMARK 3 S31: -0.5120 S32: 0.0697 S33: 0.0385 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 120 THROUGH 134 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.5941 19.7390 -59.0297 REMARK 3 T TENSOR REMARK 3 T11: 0.4649 T22: 0.4554 REMARK 3 T33: 0.5771 T12: 0.0103 REMARK 3 T13: -0.1464 T23: -0.0785 REMARK 3 L TENSOR REMARK 3 L11: 3.5473 L22: 5.5527 REMARK 3 L33: 3.2885 L12: 3.8952 REMARK 3 L13: -1.9571 L23: -0.7497 REMARK 3 S TENSOR REMARK 3 S11: -0.2260 S12: 0.7204 S13: -0.5479 REMARK 3 S21: -0.7934 S22: 0.2133 S23: 0.2647 REMARK 3 S31: 0.1346 S32: -0.8163 S33: 0.0647 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 135 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.3158 24.5210 -48.7372 REMARK 3 T TENSOR REMARK 3 T11: 0.2696 T22: 0.2621 REMARK 3 T33: 0.4178 T12: 0.0426 REMARK 3 T13: -0.0377 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 3.5898 L22: 5.6863 REMARK 3 L33: 3.5404 L12: 0.8595 REMARK 3 L13: 0.7320 L23: 1.3035 REMARK 3 S TENSOR REMARK 3 S11: -0.0194 S12: 0.0153 S13: -0.0264 REMARK 3 S21: -0.2081 S22: -0.1216 S23: 0.7194 REMARK 3 S31: -0.0884 S32: -0.4302 S33: 0.1156 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5TR8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1000224693. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42733 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 24.607 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.5700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.55300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.490 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4ZPT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% PEG3350, 100 MM HEPES PH 7.5, 5 MM REMARK 280 MGCL2, 5MM NICL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 273K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 49.23150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.66600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 49.23150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.66600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH H 518 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 THR H 131 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH L 498 O HOH L 505 1.80 REMARK 500 O HOH L 480 O HOH H 468 1.86 REMARK 500 O SER H 30 ND2 ASN H 52A 2.03 REMARK 500 OD1 ASP L 110 O HOH L 401 2.05 REMARK 500 OH TYR H 100 O HOH H 401 2.06 REMARK 500 O HOH H 473 O HOH H 482 2.09 REMARK 500 O HOH H 486 O HOH H 497 2.12 REMARK 500 O HOH H 430 O HOH H 470 2.14 REMARK 500 OG1 THR L 109 O HOH L 402 2.19 REMARK 500 O HOH H 487 O HOH H 491 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH L 438 O HOH H 449 4544 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS L 23 CA - CB - SG ANGL. DEV. = 7.5 DEGREES REMARK 500 CYS H 92 CA - CB - SG ANGL. DEV. = 7.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA L 51 -51.66 74.83 REMARK 500 ASN L 138 48.90 72.46 REMARK 500 ARG L 211 -6.13 -55.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI L 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI L 302 DBREF 5TR8 L 1 109 PDB 5TR8 5TR8 1 109 DBREF 5TR8 L 110 212 UNP Q7TS98 Q7TS98_MOUSE 132 234 DBREF 5TR8 H 1 108 PDB 5TR8 5TR8 1 108 DBREF1 5TR8 H 109 215 UNP A0A0E4B366_MOUSE DBREF2 5TR8 H A0A0E4B366 133 239 SEQADV 5TR8 SER H 115 UNP A0A0E4B36 LYS 139 CONFLICT SEQRES 1 L 212 ASP ILE LYS MET THR GLN SER PRO SER SER MET TYR ALA SEQRES 2 L 212 SER LEU GLY GLU ARG VAL THR PHE THR CYS LYS ALA SER SEQRES 3 L 212 GLN ASP ILE TYR SER SER PHE SER TRP PHE GLN GLN ARG SEQRES 4 L 212 PRO GLY LYS SER PRO LYS THR LEU ILE TYR ARG ALA ASN SEQRES 5 L 212 ARG LEU VAL ASP GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 212 GLY SER GLY GLN ASP TYR SER LEU THR ILE SER SER LEU SEQRES 7 L 212 GLU TYR GLU ASP MET GLY VAL TYR PHE CYS LEU GLN HIS SEQRES 8 L 212 GLU GLU PHE PRO PRO THR PHE GLY GLY GLY THR LYS LEU SEQRES 9 L 212 GLU LEU LYS ARG THR ASP ALA ALA PRO THR VAL SER ILE SEQRES 10 L 212 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 L 212 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 L 212 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 L 212 ASN GLY VAL LEU ASN SER TRP THR ASP GLN ASP SER LYS SEQRES 14 L 212 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 L 212 LYS ASP GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU SEQRES 16 L 212 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 L 212 PHE ASN ARG ASN SEQRES 1 H 221 GLU VAL GLN LEU VAL GLU SER GLY GLY GLY LEU MET ARG SEQRES 2 H 221 PRO GLY GLY SER LEU LYS LEU SER CYS ALA ALA SER GLY SEQRES 3 H 221 PHE ALA PHE SER ARG PHE ASP MET SER TRP VAL ARG GLN SEQRES 4 H 221 THR PRO GLU LYS ARG LEU GLU TRP VAL ALA TYR ILE ARG SEQRES 5 H 221 ASN GLY ALA ASP ASP THR TYR TYR ALA ASP THR GLU LYS SEQRES 6 H 221 GLY ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN THR SEQRES 7 H 221 LEU TYR LEU GLN LEU SER SER LEU LYS ILE GLU ASP THR SEQRES 8 H 221 ALA MET TYR TYR CYS VAL ARG HIS SER GLY TYR SER TYR SEQRES 9 H 221 VAL ILE ASP TYR TRP GLY GLN GLY THR SER VAL THR VAL SEQRES 10 H 221 SER SER ALA SER THR THR ALA PRO SER VAL TYR PRO LEU SEQRES 11 H 221 ALA PRO VAL CYS GLY GLY THR THR GLY SER SER VAL THR SEQRES 12 H 221 LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL SEQRES 13 H 221 THR LEU THR TRP ASN SER GLY SER LEU SER SER GLY VAL SEQRES 14 H 221 HIS THR PHE PRO ALA LEU LEU GLN SER GLY LEU TYR THR SEQRES 15 H 221 LEU SER SER SER VAL THR VAL THR SER ASN THR TRP PRO SEQRES 16 H 221 SER GLN THR ILE THR CYS ASN VAL ALA HIS PRO ALA SER SEQRES 17 H 221 SER THR LYS VAL ASP LYS LYS ILE GLU PRO ARG VAL PRO HET NI L 301 1 HET NI L 302 1 HETNAM NI NICKEL (II) ION FORMUL 3 NI 2(NI 2+) FORMUL 5 HOH *248(H2 O) HELIX 1 AA1 GLU L 79 MET L 83 5 5 HELIX 2 AA2 SER L 121 SER L 127 1 7 HELIX 3 AA3 LYS L 183 GLU L 187 1 5 HELIX 4 AA4 ALA H 28 PHE H 32 5 5 HELIX 5 AA5 LYS H 83 THR H 87 5 5 HELIX 6 AA6 SER H 156 SER H 158 5 3 HELIX 7 AA7 PRO H 200 SER H 203 5 4 SHEET 1 AA1 4 MET L 4 SER L 7 0 SHEET 2 AA1 4 VAL L 19 ALA L 25 -1 O LYS L 24 N THR L 5 SHEET 3 AA1 4 ASP L 70 ILE L 75 -1 O ILE L 75 N VAL L 19 SHEET 4 AA1 4 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 AA2 6 SER L 10 ALA L 13 0 SHEET 2 AA2 6 THR L 102 LEU L 106 1 O GLU L 105 N MET L 11 SHEET 3 AA2 6 GLY L 84 GLN L 90 -1 N GLY L 84 O LEU L 104 SHEET 4 AA2 6 PHE L 33 GLN L 38 -1 N GLN L 38 O VAL L 85 SHEET 5 AA2 6 LYS L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 AA2 6 ARG L 53 LEU L 54 -1 O ARG L 53 N TYR L 49 SHEET 1 AA3 4 SER L 10 ALA L 13 0 SHEET 2 AA3 4 THR L 102 LEU L 106 1 O GLU L 105 N MET L 11 SHEET 3 AA3 4 GLY L 84 GLN L 90 -1 N GLY L 84 O LEU L 104 SHEET 4 AA3 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AA4 4 THR L 114 PHE L 118 0 SHEET 2 AA4 4 GLY L 129 PHE L 139 -1 O ASN L 137 N THR L 114 SHEET 3 AA4 4 TYR L 173 THR L 182 -1 O MET L 175 N LEU L 136 SHEET 4 AA4 4 VAL L 159 TRP L 163 -1 N SER L 162 O SER L 176 SHEET 1 AA5 4 SER L 153 ARG L 155 0 SHEET 2 AA5 4 ASN L 145 ILE L 150 -1 N ILE L 150 O SER L 153 SHEET 3 AA5 4 SER L 191 THR L 197 -1 O THR L 197 N ASN L 145 SHEET 4 AA5 4 ILE L 205 ASN L 210 -1 O LYS L 207 N CYS L 194 SHEET 1 AA6 4 GLN H 3 SER H 7 0 SHEET 2 AA6 4 LEU H 18 SER H 25 -1 O SER H 25 N GLN H 3 SHEET 3 AA6 4 THR H 77 LEU H 82 -1 O LEU H 82 N LEU H 18 SHEET 4 AA6 4 PHE H 67 ASP H 72 -1 N THR H 68 O GLN H 81 SHEET 1 AA7 6 LEU H 11 MET H 12 0 SHEET 2 AA7 6 THR H 107 VAL H 111 1 O THR H 110 N MET H 12 SHEET 3 AA7 6 ALA H 88 HIS H 95 -1 N ALA H 88 O VAL H 109 SHEET 4 AA7 6 MET H 34 GLN H 39 -1 N VAL H 37 O TYR H 91 SHEET 5 AA7 6 LEU H 45 ILE H 51 -1 O ILE H 51 N MET H 34 SHEET 6 AA7 6 THR H 57 TYR H 59 -1 O TYR H 58 N TYR H 50 SHEET 1 AA8 4 LEU H 11 MET H 12 0 SHEET 2 AA8 4 THR H 107 VAL H 111 1 O THR H 110 N MET H 12 SHEET 3 AA8 4 ALA H 88 HIS H 95 -1 N ALA H 88 O VAL H 109 SHEET 4 AA8 4 ILE H 100B TRP H 103 -1 O ASP H 101 N ARG H 94 SHEET 1 AA9 4 SER H 120 LEU H 124 0 SHEET 2 AA9 4 SER H 135 TYR H 145 -1 O LEU H 141 N TYR H 122 SHEET 3 AA9 4 LEU H 174 THR H 184 -1 O LEU H 177 N VAL H 142 SHEET 4 AA9 4 VAL H 163 GLN H 171 -1 N GLN H 171 O LEU H 174 SHEET 1 AB1 3 THR H 151 TRP H 154 0 SHEET 2 AB1 3 THR H 194 HIS H 199 -1 O ASN H 196 N THR H 153 SHEET 3 AB1 3 THR H 204 LYS H 209 -1 O VAL H 206 N VAL H 197 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.09 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.05 SSBOND 3 CYS H 22 CYS H 92 1555 1555 2.07 SSBOND 4 CYS H 140 CYS H 195 1555 1555 2.06 CISPEP 1 SER L 7 PRO L 8 0 -5.08 CISPEP 2 PHE L 94 PRO L 95 0 -3.84 CISPEP 3 TYR L 140 PRO L 141 0 -0.15 CISPEP 4 PHE H 146 PRO H 147 0 -4.09 CISPEP 5 GLU H 148 PRO H 149 0 -3.62 CISPEP 6 TRP H 188 PRO H 189 0 4.97 CISPEP 7 VAL H 214 PRO H 215 0 -5.74 SITE 1 AC1 4 ASP L 1 LYS L 3 GLU L 185 HIS L 189 SITE 1 AC2 6 HIS H 164 HOH H 494 ASP L 167 HOH L 403 SITE 2 AC2 6 HOH L 404 HOH L 435 CRYST1 98.463 83.332 83.160 90.00 105.69 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010156 0.000000 0.002854 0.00000 SCALE2 0.000000 0.012000 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012491 0.00000